Skip Navigation

This Article
Right arrow Full Text Freely available
Right arrow Print PDF (123K) Freely available
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (60)
Right arrowRequest Permissions
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Kuhn, H.
Right arrow Articles by Nielsen, P. E.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Kuhn, H.
Right arrow Articles by Nielsen, P. E.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, Vol 26, Issue 2 582-587, Copyright © 1998 by Oxford University Press

ARTICLES

Kinetic sequence discrimination of cationic bis-PNAs upon targeting of double-stranded DNA

H Kuhn, VV Demidov, MD Frank-Kamenetskii and PE Nielsen
Center for Biomolecular Recognition, Department for Biochemistry and Genetics Laboratory B, The Panum Institute, Blegdamsvej 3c, DK-2200 Copenhagen N, Denmark.

Strand displacement binding kinetics of cationic pseudoisocytosine- containing linked homopyrimidine peptide nucleic acids (bis-PNAs) to fully matched and singly mismatched decapurine targets in double- stranded DNA (dsDNA) are reported. PNA-dsDNA complex formation was monitored by gel mobility shift assay and pseudo-first order kinetics of binding was obeyed in all cases studied. The kinetic specificity of PNA binding to dsDNA, defined as the ratio of the initial rates of binding to matched and mismatched targets, increases with increasing ionic strength, whereas the apparent rate constant for bis-PNA-dsDNA complex formation decreases exponentially. Surprisingly, at very low ionic strength two equally charged bis-PNAs which have the same sequence of nucleobases but different linkers and consequently different locations of three positive charges differ in their specificity of binding by one order of magnitude. Under appropriate experimental conditions the kinetic specificity for bis-PNA targeting of dsDNA is as high as 300. Thus multiply charged cationic bis-PNAs containing pseudoisocytosines (J bases) in the Hoogsteen strand combined with enhanced binding affinity also exhibit very high sequence specificity, thereby making such reagents extremely efficient for sequence-specific targeting of duplex DNA.
Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Nucleic Acids ResHome page
M. E. Hansen, T. Bentin, and P. E. Nielsen
High-affinity triplex targeting of double stranded DNA using chemically modified peptide nucleic acid oligomers
Nucleic Acids Res., July 1, 2009; 37(13): 4498 - 4507.
[Abstract] [Full Text] [PDF]

Home page
 Appl. Environ. Microbiol.Home page
X. Li, E. Morgenroth, and L. Raskin
Quantitative rRNA-Targeted Solution-Based Hybridization Assay Using Peptide Nucleic Acid Molecular Beacons
Appl. Envir. Microbiol., December 1, 2008; 74(23): 7297 - 7305.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
J. Y. Chin, J. Y. Kuan, P. S. Lonkar, D. S. Krause, M. M. Seidman, K. R. Peterson, P. E. Nielsen, R. Kole, and P. M. Glazer
Correction of a splice-site mutation in the beta-globin gene stimulated by triplex-forming peptide nucleic acids
PNAS, September 9, 2008; 105(36): 13514 - 13519.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
T. Bentin, G. I. Hansen, and P. E. Nielsen
Structural diversity of target-specific homopyrimidine peptide nucleic acid-dsDNA complexes
Nucleic Acids Res., November 6, 2006; 34(20): 5790 - 5799.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
I. V. Smolina, V. V. Demidov, V. A. Soldatenkov, S. G. Chasovskikh, and M. D. Frank-Kamenetskii
End invasion of peptide nucleic acids (PNAs) with mixed-base composition into linear DNA duplexes
Nucleic Acids Res., October 4, 2005; 33(17): e146 - e146.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
X. Qu, D. Wu, L. Mets, and N. F. Scherer
Nanometer-localized multiple single-molecule fluorescence microscopy
PNAS, August 3, 2004; 101(31): 11298 - 11303.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
H. Kuhn, D. I. Cherny, V. V. Demidov, and M. D. Frank-Kamenetskii
Inducing and modulating anisotropic DNA bends by pseudocomplementary peptide nucleic acids
PNAS, May 18, 2004; 101(20): 7548 - 7553.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
E. Protozanova, V. V. Demidov, P. E. Nielsen, and M. D. Frank-Kamenetskii
Pseudocomplementary PNAs as selective modifiers of protein activity on duplex DNA: the case of type IIs restriction enzymes
Nucleic Acids Res., July 15, 2003; 31(14): 3929 - 3935.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
V. V. Demidov, E. Protozanova, K. I. Izvolsky, C. Price, P. E. Nielsen, and M. D. Frank-Kamenetskii
Kinetics and mechanism of the DNA double helix invasion by pseudocomplementary peptide nucleic acids
PNAS, April 30, 2002; 99(9): 5953 - 5958.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
H. Kuhn, V. V. Demidov, and M. D. Frank-Kamenetskii
Rolling-circle amplification under topological constraints
Nucleic Acids Res., January 15, 2002; 30(2): 574 - 580.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
X. Zhang, T. Ishihara, and D. R. Corey
Strand invasion by mixed base PNAs and a PNA-peptide chimera
Nucleic Acids Res., September 1, 2000; 28(17): 3332 - 3338.
[Abstract] [Full Text] [PDF]

Home page
 FASEB J.Home page
A. RAY and B. NORDÉN
Peptide nucleic acid (PNA): its medical and biotechnical applications and promise for the future
FASEB J, June 1, 2000; 14(9): 1041 - 1060.
[Abstract] [Full Text]

Home page
 Proc. Natl. Acad. Sci. USAHome page
J. Lohse, O. Dahl, and P. E. Nielsen
Double duplex invasion by peptide nucleic acid: A general principle for sequence-specific targeting of double-stranded DNA
PNAS, October 12, 1999; 96(21): 11804 - 11808.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
N. O. Bukanov, V. V. Demidov, P. E. Nielsen, and M. D. Frank-Kamenetskii
PD-loop: A complex of duplex DNA with an oligonucleotide
PNAS, May 12, 1998; 95(10): 5516 - 5520.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
V. V. Demidov, E. Protozanova, K. I. Izvolsky, C. Price, P. E. Nielsen, and M. D. Frank-Kamenetskii
Kinetics and mechanism of the DNA double helix invasion by pseudocomplementary peptide nucleic acids
PNAS, April 30, 2002; 99(9): 5953 - 5958.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.